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  1. EMP_H3/EMP_H3_test.csv.gz +3 -0
  2. EMP_H3/EMP_H3_train.csv.gz +3 -0
  3. EMP_H3/EMP_H3_val.csv.gz +3 -0
  4. EMP_H3K14ac/EMP_H3K14ac_test.csv.gz +3 -0
  5. EMP_H3K14ac/EMP_H3K14ac_train.csv.gz +3 -0
  6. EMP_H3K14ac/EMP_H3K14ac_val.csv.gz +3 -0
  7. EMP_H3K36me3/EMP_H3K36me3_test.csv.gz +3 -0
  8. EMP_H3K36me3/EMP_H3K36me3_train.csv.gz +3 -0
  9. EMP_H3K36me3/EMP_H3K36me3_val.csv.gz +3 -0
  10. EMP_H3K4me1/EMP_H3K4me1_test.csv.gz +3 -0
  11. EMP_H3K4me1/EMP_H3K4me1_train.csv.gz +3 -0
  12. EMP_H3K4me1/EMP_H3K4me1_val.csv.gz +3 -0
  13. EMP_H3K4me2/EMP_H3K4me2_test.csv.gz +3 -0
  14. EMP_H3K4me2/EMP_H3K4me2_train.csv.gz +3 -0
  15. EMP_H3K4me2/EMP_H3K4me2_val.csv.gz +3 -0
  16. EMP_H3K4me3/EMP_H3K4me3_test.csv.gz +3 -0
  17. EMP_H3K4me3/EMP_H3K4me3_train.csv.gz +3 -0
  18. EMP_H3K4me3/EMP_H3K4me3_val.csv.gz +3 -0
  19. EMP_H3K79me3/EMP_H3K79me3_test.csv.gz +3 -0
  20. EMP_H3K79me3/EMP_H3K79me3_train.csv.gz +3 -0
  21. EMP_H3K79me3/EMP_H3K79me3_val.csv.gz +3 -0
  22. EMP_H3K9ac/EMP_H3K9ac_test.csv.gz +3 -0
  23. EMP_H3K9ac/EMP_H3K9ac_train.csv.gz +3 -0
  24. EMP_H3K9ac/EMP_H3K9ac_val.csv.gz +3 -0
  25. EMP_H4/EMP_H4_test.csv.gz +3 -0
  26. EMP_H4/EMP_H4_train.csv.gz +3 -0
  27. EMP_H4/EMP_H4_val.csv.gz +3 -0
  28. EMP_H4ac/EMP_H4ac_test.csv.gz +3 -0
  29. EMP_H4ac/EMP_H4ac_train.csv.gz +3 -0
  30. EMP_H4ac/EMP_H4ac_val.csv.gz +3 -0
  31. EPI_GM12878/EPI_GM12878_test.csv.gz +3 -0
  32. EPI_GM12878/EPI_GM12878_train.csv.gz +3 -0
  33. EPI_GM12878/EPI_GM12878_val.csv.gz +3 -0
  34. EPI_HUVEC/EPI_HUVEC_test.csv.gz +3 -0
  35. EPI_HUVEC/EPI_HUVEC_train.csv.gz +3 -0
  36. EPI_HUVEC/EPI_HUVEC_val.csv.gz +3 -0
  37. EPI_HeLa-S3/EPI_HeLa-S3_test.csv.gz +3 -0
  38. EPI_HeLa-S3/EPI_HeLa-S3_train.csv.gz +3 -0
  39. EPI_HeLa-S3/EPI_HeLa-S3_val.csv.gz +3 -0
  40. EPI_IMR90/EPI_IMR90_test.csv.gz +3 -0
  41. EPI_IMR90/EPI_IMR90_train.csv.gz +3 -0
  42. EPI_IMR90/EPI_IMR90_val.csv.gz +3 -0
  43. EPI_K562/EPI_K562_test.csv.gz +3 -0
  44. EPI_K562/EPI_K562_train.csv.gz +3 -0
  45. EPI_K562/EPI_K562_val.csv.gz +3 -0
  46. EPI_NHEK/EPI_NHEK_test.csv.gz +3 -0
  47. EPI_NHEK/EPI_NHEK_train.csv.gz +3 -0
  48. EPI_NHEK/EPI_NHEK_val.csv.gz +3 -0
  49. GUE_v2_metadata.json +0 -0
  50. README.md +433 -0
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+ ---
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+ configs:
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+ - config_name: EMP_H3
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+ data_files:
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+ - split: train
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+ path: EMP_H3/EMP_H3_train.csv.gz
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+ - split: validation
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+ path: EMP_H3/EMP_H3_val.csv.gz
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+ - split: test
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+ path: EMP_H3/EMP_H3_test.csv.gz
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+
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+ - config_name: EMP_H3K14ac
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+ data_files:
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+ - split: train
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+ path: EMP_H3K14ac/EMP_H3K14ac_train.csv.gz
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+ - split: validation
17
+ path: EMP_H3K14ac/EMP_H3K14ac_val.csv.gz
18
+ - split: test
19
+ path: EMP_H3K14ac/EMP_H3K14ac_test.csv.gz
20
+
21
+ - config_name: EMP_H3K36me3
22
+ data_files:
23
+ - split: train
24
+ path: EMP_H3K36me3/EMP_H3K36me3_train.csv.gz
25
+ - split: validation
26
+ path: EMP_H3K36me3/EMP_H3K36me3_val.csv.gz
27
+ - split: test
28
+ path: EMP_H3K36me3/EMP_H3K36me3_test.csv.gz
29
+
30
+ - config_name: EMP_H3K4me1
31
+ data_files:
32
+ - split: train
33
+ path: EMP_H3K4me1/EMP_H3K4me1_train.csv.gz
34
+ - split: validation
35
+ path: EMP_H3K4me1/EMP_H3K4me1_val.csv.gz
36
+ - split: test
37
+ path: EMP_H3K4me1/EMP_H3K4me1_test.csv.gz
38
+
39
+ - config_name: EMP_H3K4me2
40
+ data_files:
41
+ - split: train
42
+ path: EMP_H3K4me2/EMP_H3K4me2_train.csv.gz
43
+ - split: validation
44
+ path: EMP_H3K4me2/EMP_H3K4me2_val.csv.gz
45
+ - split: test
46
+ path: EMP_H3K4me2/EMP_H3K4me2_test.csv.gz
47
+
48
+ - config_name: EMP_H3K4me3
49
+ data_files:
50
+ - split: train
51
+ path: EMP_H3K4me3/EMP_H3K4me3_train.csv.gz
52
+ - split: validation
53
+ path: EMP_H3K4me3/EMP_H3K4me3_val.csv.gz
54
+ - split: test
55
+ path: EMP_H3K4me3/EMP_H3K4me3_test.csv.gz
56
+
57
+ - config_name: EMP_H3K79me3
58
+ data_files:
59
+ - split: train
60
+ path: EMP_H3K79me3/EMP_H3K79me3_train.csv.gz
61
+ - split: validation
62
+ path: EMP_H3K79me3/EMP_H3K79me3_val.csv.gz
63
+ - split: test
64
+ path: EMP_H3K79me3/EMP_H3K79me3_test.csv.gz
65
+
66
+ - config_name: EMP_H3K9ac
67
+ data_files:
68
+ - split: train
69
+ path: EMP_H3K9ac/EMP_H3K9ac_train.csv.gz
70
+ - split: validation
71
+ path: EMP_H3K9ac/EMP_H3K9ac_val.csv.gz
72
+ - split: test
73
+ path: EMP_H3K9ac/EMP_H3K9ac_test.csv.gz
74
+
75
+ - config_name: EMP_H4
76
+ data_files:
77
+ - split: train
78
+ path: EMP_H4/EMP_H4_train.csv.gz
79
+ - split: validation
80
+ path: EMP_H4/EMP_H4_val.csv.gz
81
+ - split: test
82
+ path: EMP_H4/EMP_H4_test.csv.gz
83
+
84
+ - config_name: EMP_H4ac
85
+ data_files:
86
+ - split: train
87
+ path: EMP_H4ac/EMP_H4ac_train.csv.gz
88
+ - split: validation
89
+ path: EMP_H4ac/EMP_H4ac_val.csv.gz
90
+ - split: test
91
+ path: EMP_H4ac/EMP_H4ac_test.csv.gz
92
+
93
+ - config_name: EPI_GM12878
94
+ data_files:
95
+ - split: train
96
+ path: EPI_GM12878/EPI_GM12878_train.csv.gz
97
+ - split: validation
98
+ path: EPI_GM12878/EPI_GM12878_val.csv.gz
99
+ - split: test
100
+ path: EPI_GM12878/EPI_GM12878_test.csv.gz
101
+
102
+ - config_name: EPI_HUVEC
103
+ data_files:
104
+ - split: train
105
+ path: EPI_HUVEC/EPI_HUVEC_train.csv.gz
106
+ - split: validation
107
+ path: EPI_HUVEC/EPI_HUVEC_val.csv.gz
108
+ - split: test
109
+ path: EPI_HUVEC/EPI_HUVEC_test.csv.gz
110
+
111
+ - config_name: EPI_HeLa-S3
112
+ data_files:
113
+ - split: train
114
+ path: EPI_HeLa-S3/EPI_HeLa-S3_train.csv.gz
115
+ - split: validation
116
+ path: EPI_HeLa-S3/EPI_HeLa-S3_val.csv.gz
117
+ - split: test
118
+ path: EPI_HeLa-S3/EPI_HeLa-S3_test.csv.gz
119
+
120
+ - config_name: EPI_IMR90
121
+ data_files:
122
+ - split: train
123
+ path: EPI_IMR90/EPI_IMR90_train.csv.gz
124
+ - split: validation
125
+ path: EPI_IMR90/EPI_IMR90_val.csv.gz
126
+ - split: test
127
+ path: EPI_IMR90/EPI_IMR90_test.csv.gz
128
+
129
+ - config_name: EPI_K562
130
+ data_files:
131
+ - split: train
132
+ path: EPI_K562/EPI_K562_train.csv.gz
133
+ - split: validation
134
+ path: EPI_K562/EPI_K562_val.csv.gz
135
+ - split: test
136
+ path: EPI_K562/EPI_K562_test.csv.gz
137
+
138
+ - config_name: EPI_NHEK
139
+ data_files:
140
+ - split: train
141
+ path: EPI_NHEK/EPI_NHEK_train.csv.gz
142
+ - split: validation
143
+ path: EPI_NHEK/EPI_NHEK_val.csv.gz
144
+ - split: test
145
+ path: EPI_NHEK/EPI_NHEK_test.csv.gz
146
+
147
+ - config_name: mouse_0
148
+ data_files:
149
+ - split: train
150
+ path: mouse_0/mouse_0_train.csv.gz
151
+ - split: validation
152
+ path: mouse_0/mouse_0_val.csv.gz
153
+ - split: test
154
+ path: mouse_0/mouse_0_test.csv.gz
155
+
156
+ - config_name: mouse_1
157
+ data_files:
158
+ - split: train
159
+ path: mouse_1/mouse_1_train.csv.gz
160
+ - split: validation
161
+ path: mouse_1/mouse_1_val.csv.gz
162
+ - split: test
163
+ path: mouse_1/mouse_1_test.csv.gz
164
+
165
+ - config_name: mouse_2
166
+ data_files:
167
+ - split: train
168
+ path: mouse_2/mouse_2_train.csv.gz
169
+ - split: validation
170
+ path: mouse_2/mouse_2_val.csv.gz
171
+ - split: test
172
+ path: mouse_2/mouse_2_test.csv.gz
173
+
174
+ - config_name: mouse_3
175
+ data_files:
176
+ - split: train
177
+ path: mouse_3/mouse_3_train.csv.gz
178
+ - split: validation
179
+ path: mouse_3/mouse_3_val.csv.gz
180
+ - split: test
181
+ path: mouse_3/mouse_3_test.csv.gz
182
+
183
+ - config_name: mouse_4
184
+ data_files:
185
+ - split: train
186
+ path: mouse_4/mouse_4_train.csv.gz
187
+ - split: validation
188
+ path: mouse_4/mouse_4_val.csv.gz
189
+ - split: test
190
+ path: mouse_4/mouse_4_test.csv.gz
191
+
192
+ - config_name: prom_300_all
193
+ data_files:
194
+ - split: train
195
+ path: prom_300_all/prom_300_all_train.csv.gz
196
+ - split: validation
197
+ path: prom_300_all/prom_300_all_val.csv.gz
198
+ - split: test
199
+ path: prom_300_all/prom_300_all_test.csv.gz
200
+
201
+ - config_name: prom_300_notata
202
+ data_files:
203
+ - split: train
204
+ path: prom_300_notata/prom_300_notata_train.csv.gz
205
+ - split: validation
206
+ path: prom_300_notata/prom_300_notata_val.csv.gz
207
+ - split: test
208
+ path: prom_300_notata/prom_300_notata_test.csv.gz
209
+
210
+ - config_name: prom_300_tata
211
+ data_files:
212
+ - split: train
213
+ path: prom_300_tata/prom_300_tata_train.csv.gz
214
+ - split: validation
215
+ path: prom_300_tata/prom_300_tata_val.csv.gz
216
+ - split: test
217
+ path: prom_300_tata/prom_300_tata_test.csv.gz
218
+
219
+ - config_name: prom_core_all
220
+ data_files:
221
+ - split: train
222
+ path: prom_core_all/prom_core_all_train.csv.gz
223
+ - split: validation
224
+ path: prom_core_all/prom_core_all_val.csv.gz
225
+ - split: test
226
+ path: prom_core_all/prom_core_all_test.csv.gz
227
+
228
+ - config_name: prom_core_notata
229
+ data_files:
230
+ - split: train
231
+ path: prom_core_notata/prom_core_notata_train.csv.gz
232
+ - split: validation
233
+ path: prom_core_notata/prom_core_notata_val.csv.gz
234
+ - split: test
235
+ path: prom_core_notata/prom_core_notata_test.csv.gz
236
+
237
+ - config_name: prom_core_tata
238
+ data_files:
239
+ - split: train
240
+ path: prom_core_tata/prom_core_tata_train.csv.gz
241
+ - split: validation
242
+ path: prom_core_tata/prom_core_tata_val.csv.gz
243
+ - split: test
244
+ path: prom_core_tata/prom_core_tata_test.csv.gz
245
+
246
+ - config_name: tf_0
247
+ data_files:
248
+ - split: train
249
+ path: tf_0/tf_0_train.csv.gz
250
+ - split: validation
251
+ path: tf_0/tf_0_val.csv.gz
252
+ - split: test
253
+ path: tf_0/tf_0_test.csv.gz
254
+
255
+ - config_name: tf_1
256
+ data_files:
257
+ - split: train
258
+ path: tf_1/tf_1_train.csv.gz
259
+ - split: validation
260
+ path: tf_1/tf_1_val.csv.gz
261
+ - split: test
262
+ path: tf_1/tf_1_test.csv.gz
263
+
264
+ - config_name: tf_2
265
+ data_files:
266
+ - split: train
267
+ path: tf_2/tf_2_train.csv.gz
268
+ - split: validation
269
+ path: tf_2/tf_2_val.csv.gz
270
+ - split: test
271
+ path: tf_2/tf_2_test.csv.gz
272
+
273
+ - config_name: tf_3
274
+ data_files:
275
+ - split: train
276
+ path: tf_3/tf_3_train.csv.gz
277
+ - split: validation
278
+ path: tf_3/tf_3_val.csv.gz
279
+ - split: test
280
+ path: tf_3/tf_3_test.csv.gz
281
+
282
+ - config_name: tf_4
283
+ data_files:
284
+ - split: train
285
+ path: tf_4/tf_4_train.csv.gz
286
+ - split: validation
287
+ path: tf_4/tf_4_val.csv.gz
288
+ - split: test
289
+ path: tf_4/tf_4_test.csv.gz
290
+ ---
291
+
292
+ # GUE_v2
293
+
294
+ ## Overview
295
+
296
+ GUE_v2 is a collection ...
297
+
298
+ ## Dataset structure
299
+
300
+ The repository is organized as follows:
301
+ ```
302
+ GUE_v2/
303
+ ├── README.md
304
+ ├── GUE_v2_metadata.json
305
+ ├── EMP_H3/
306
+ │ ├── EMP_H3_train.csv.gz
307
+ │ ├── EMP_H3_val.csv.gz
308
+ │ └── EMP_H3_test.csv.gz
309
+ ├── EMP_H3K14ac/
310
+ │ ├── EMP_H3K14ac_train.csv.gz
311
+ │ ├── EMP_H3K14ac_val.csv.gz
312
+ │ └── EMP_H3K14ac_test.csv.gz
313
+ ├── EMP_H3K36me3/
314
+ │ ├── EMP_H3K36me3_train.csv.gz
315
+ │ ├── EMP_H3K36me3_val.csv.gz
316
+ │ └── EMP_H3K36me3_test.csv.gz
317
+ ├── EMP_H3K4me1/
318
+ │ ├── EMP_H3K4me1_train.csv.gz
319
+ │ ├── EMP_H3K4me1_val.csv.gz
320
+ │ └── EMP_H3K4me1_test.csv.gz
321
+ ├── EMP_H3K4me2/
322
+ │ ├── EMP_H3K4me2_train.csv.gz
323
+ │ ├── EMP_H3K4me2_val.csv.gz
324
+ │ └── EMP_H3K4me2_test.csv.gz
325
+ ├── EMP_H3K4me3/
326
+ │ ├── EMP_H3K4me3_train.csv.gz
327
+ │ ├── EMP_H3K4me3_val.csv.gz
328
+ │ └── EMP_H3K4me3_test.csv.gz
329
+ ├── EMP_H3K79me3/
330
+ │ ├── EMP_H3K79me3_train.csv.gz
331
+ │ ├── EMP_H3K79me3_val.csv.gz
332
+ │ └── EMP_H3K79me3_test.csv.gz
333
+ ├── EMP_H3K9ac/
334
+ │ ├── EMP_H3K9ac_train.csv.gz
335
+ │ ├── EMP_H3K9ac_val.csv.gz
336
+ │ └── EMP_H3K9ac_test.csv.gz
337
+ ├── EMP_H4/
338
+ │ ├── EMP_H4_train.csv.gz
339
+ │ ├── EMP_H4_val.csv.gz
340
+ │ └── EMP_H4_test.csv.gz
341
+ ├── EMP_H4ac/
342
+ │ ├── EMP_H4ac_train.csv.gz
343
+ │ ├── EMP_H4ac_val.csv.gz
344
+ │ └── EMP_H4ac_test.csv.gz
345
+ ├── EPI_GM12878/
346
+ │ ├── EPI_GM12878_train.csv.gz
347
+ │ ├── EPI_GM12878_val.csv.gz
348
+ │ └── EPI_GM12878_test.csv.gz
349
+ ├── EPI_HUVEC/
350
+ │ ├── EPI_HUVEC_train.csv.gz
351
+ │ ├── EPI_HUVEC_val.csv.gz
352
+ │ └── EPI_HUVEC_test.csv.gz
353
+ ├── EPI_HeLa-S3/
354
+ │ ├── EPI_HeLa-S3_train.csv.gz
355
+ │ ├── EPI_HeLa-S3_val.csv.gz
356
+ │ └── EPI_HeLa-S3_test.csv.gz
357
+ ├── EPI_IMR90/
358
+ │ ├── EPI_IMR90_train.csv.gz
359
+ │ ├── EPI_IMR90_val.csv.gz
360
+ │ └── EPI_IMR90_test.csv.gz
361
+ ├── EPI_K562/
362
+ │ ├── EPI_K562_train.csv.gz
363
+ │ ├── EPI_K562_val.csv.gz
364
+ │ └── EPI_K562_test.csv.gz
365
+ ├── EPI_NHEK/
366
+ │ ├── EPI_NHEK_train.csv.gz
367
+ │ ├── EPI_NHEK_val.csv.gz
368
+ │ └── EPI_NHEK_test.csv.gz
369
+ ├── mouse_0/
370
+ │ ├── mouse_0_train.csv.gz
371
+ │ ├── mouse_0_val.csv.gz
372
+ │ └── mouse_0_test.csv.gz
373
+ ├── mouse_1/
374
+ │ ├── mouse_1_train.csv.gz
375
+ │ ├── mouse_1_val.csv.gz
376
+ │ └── mouse_1_test.csv.gz
377
+ ├── mouse_2/
378
+ │ ├── mouse_2_train.csv.gz
379
+ │ ├── mouse_2_val.csv.gz
380
+ │ └── mouse_2_test.csv.gz
381
+ ├── mouse_3/
382
+ │ ├── mouse_3_train.csv.gz
383
+ │ ├── mouse_3_val.csv.gz
384
+ │ └── mouse_3_test.csv.gz
385
+ ├── mouse_4/
386
+ │ ├── mouse_4_train.csv.gz
387
+ │ ├── mouse_4_val.csv.gz
388
+ │ └── mouse_4_test.csv.gz
389
+ ├── prom_300_all/
390
+ │ ├── prom_300_all_train.csv.gz
391
+ │ ├── prom_300_all_val.csv.gz
392
+ │ └── prom_300_all_test.csv.gz
393
+ ├── prom_300_notata/
394
+ │ ├── prom_300_notata_train.csv.gz
395
+ │ ├── prom_300_notata_val.csv.gz
396
+ │ └── prom_300_notata_test.csv.gz
397
+ ├── prom_300_tata/
398
+ │ ├── prom_300_tata_train.csv.gz
399
+ │ ├── prom_300_tata_val.csv.gz
400
+ │ └── prom_300_tata_test.csv.gz
401
+ ├── prom_core_all/
402
+ │ ├── prom_core_all_train.csv.gz
403
+ │ ├── prom_core_all_val.csv.gz
404
+ │ └── prom_core_all_test.csv.gz
405
+ ├── prom_core_notata/
406
+ │ ├── prom_core_notata_train.csv.gz
407
+ │ ├── prom_core_notata_val.csv.gz
408
+ │ └── prom_core_notata_test.csv.gz
409
+ ├── prom_core_tata/
410
+ │ ├── prom_core_tata_train.csv.gz
411
+ │ ├── prom_core_tata_val.csv.gz
412
+ │ └── prom_core_tata_test.csv.gz
413
+ ├── tf_0/
414
+ │ ├── tf_0_train.csv.gz
415
+ │ ├── tf_0_val.csv.gz
416
+ │ └── tf_0_test.csv.gz
417
+ ├── tf_1/
418
+ │ ├── tf_1_train.csv.gz
419
+ │ ├── tf_1_val.csv.gz
420
+ │ └── tf_1_test.csv.gz
421
+ ├── tf_2/
422
+ │ ├── tf_2_train.csv.gz
423
+ │ ├── tf_2_val.csv.gz
424
+ │ └── tf_2_test.csv.gz
425
+ ├── tf_3/
426
+ │ ├── tf_3_train.csv.gz
427
+ │ ├── tf_3_val.csv.gz
428
+ │ └── tf_3_test.csv.gz
429
+ └── tf_4/
430
+ ├── tf_4_train.csv.gz
431
+ ├── tf_4_val.csv.gz
432
+ └── tf_4_test.csv.gz
433
+ ```